| 5bb21ad5 |
/*
* RAZF : Random Access compressed(Z) File
* Version: 1.0
* Release Date: 2008-10-27
*
* Copyright 2008, Jue Ruan <ruanjue@gmail.com>, Heng Li <lh3@sanger.ac.uk>
*
* All rights reserved.
*
* Redistribution and use in source and binary forms, with or without
* modification, are permitted provided that the following conditions
* are met:
* 1. Redistributions of source code must retain the above copyright
* notice, this list of conditions and the following disclaimer.
* 2. Redistributions in binary form must reproduce the above copyright
* notice, this list of conditions and the following disclaimer in the
* documentation and/or other materials provided with the distribution.
*
* THIS SOFTWARE IS PROVIDED BY THE AUTHOR AND CONTRIBUTORS ``AS IS'' AND
* ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
* IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
* ARE DISCLAIMED. IN NO EVENT SHALL THE AUTHOR OR CONTRIBUTORS BE LIABLE
* FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
* DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS
* OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION)
* HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
* LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY
* OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF
* SUCH DAMAGE.
*/
#ifndef _NO_RAZF
#include <fcntl.h>
#include <stdio.h>
#include <stdlib.h>
#include <string.h>
#include <unistd.h>
#include "razf.h"
#if ZLIB_VERNUM < 0x1221
struct _gz_header_s {
int text;
uLong time;
int xflags;
int os;
Bytef *extra;
uInt extra_len;
uInt extra_max;
Bytef *name;
uInt name_max;
Bytef *comment;
uInt comm_max;
int hcrc;
int done;
};
#warning "zlib < 1.2.2.1; RAZF writing is disabled."
#endif
#define DEF_MEM_LEVEL 8
static inline uint32_t byte_swap_4(uint32_t v){
v = ((v & 0x0000FFFFU) << 16) | (v >> 16);
return ((v & 0x00FF00FFU) << 8) | ((v & 0xFF00FF00U) >> 8);
}
static inline uint64_t byte_swap_8(uint64_t v){
v = ((v & 0x00000000FFFFFFFFLLU) << 32) | (v >> 32);
v = ((v & 0x0000FFFF0000FFFFLLU) << 16) | ((v & 0xFFFF0000FFFF0000LLU) >> 16);
return ((v & 0x00FF00FF00FF00FFLLU) << 8) | ((v & 0xFF00FF00FF00FF00LLU) >> 8);
}
static inline int is_big_endian(){
int x = 0x01;
char *c = (char*)&x;
return (c[0] != 0x01);
}
#ifndef _RZ_READONLY
static void add_zindex(RAZF *rz, int64_t in, int64_t out){
if(rz->index->size == rz->index->cap){
rz->index->cap = rz->index->cap * 1.5 + 2;
rz->index->cell_offsets = realloc(rz->index->cell_offsets, sizeof(int) * rz->index->cap);
rz->index->bin_offsets = realloc(rz->index->bin_offsets, sizeof(int64_t) * (rz->index->cap/RZ_BIN_SIZE + 1));
}
if(rz->index->size % RZ_BIN_SIZE == 0) rz->index->bin_offsets[rz->index->size / RZ_BIN_SIZE] = out;
rz->index->cell_offsets[rz->index->size] = out - rz->index->bin_offsets[rz->index->size / RZ_BIN_SIZE];
rz->index->size ++;
}
static void save_zindex(RAZF *rz, int fd){
int32_t i, v32;
int is_be;
is_be = is_big_endian();
if(is_be) write(fd, &rz->index->size, sizeof(int));
else {
v32 = byte_swap_4((uint32_t)rz->index->size);
write(fd, &v32, sizeof(uint32_t));
}
v32 = rz->index->size / RZ_BIN_SIZE + 1;
if(!is_be){
for(i=0;i<v32;i++) rz->index->bin_offsets[i] = byte_swap_8((uint64_t)rz->index->bin_offsets[i]);
for(i=0;i<rz->index->size;i++) rz->index->cell_offsets[i] = byte_swap_4((uint32_t)rz->index->cell_offsets[i]);
}
write(fd, rz->index->bin_offsets, sizeof(int64_t) * v32);
write(fd, rz->index->cell_offsets, sizeof(int32_t) * rz->index->size);
}
#endif
#ifdef _USE_KNETFILE
static void load_zindex(RAZF *rz, knetFile *fp){
#else
static void load_zindex(RAZF *rz, int fd){
#endif
int32_t i, v32;
int is_be;
if(!rz->load_index) return;
if(rz->index == NULL) rz->index = malloc(sizeof(ZBlockIndex));
is_be = is_big_endian();
#ifdef _USE_KNETFILE
knet_read(fp, &rz->index->size, sizeof(int));
#else
read(fd, &rz->index->size, sizeof(int));
#endif
if(!is_be) rz->index->size = byte_swap_4((uint32_t)rz->index->size);
rz->index->cap = rz->index->size;
v32 = rz->index->size / RZ_BIN_SIZE + 1;
rz->index->bin_offsets = malloc(sizeof(int64_t) * v32);
#ifdef _USE_KNETFILE
knet_read(fp, rz->index->bin_offsets, sizeof(int64_t) * v32);
#else
read(fd, rz->index->bin_offsets, sizeof(int64_t) * v32);
#endif
rz->index->cell_offsets = malloc(sizeof(int) * rz->index->size);
#ifdef _USE_KNETFILE
knet_read(fp, rz->index->cell_offsets, sizeof(int) * rz->index->size);
#else
read(fd, rz->index->cell_offsets, sizeof(int) * rz->index->size);
#endif
if(!is_be){
for(i=0;i<v32;i++) rz->index->bin_offsets[i] = byte_swap_8((uint64_t)rz->index->bin_offsets[i]);
for(i=0;i<rz->index->size;i++) rz->index->cell_offsets[i] = byte_swap_4((uint32_t)rz->index->cell_offsets[i]);
}
}
#ifdef _RZ_READONLY
static RAZF* razf_open_w(int fd)
{
fprintf(stderr, "[razf_open_w] Writing is not available with zlib ver < 1.2.2.1\n");
return 0;
}
#else
static RAZF* razf_open_w(int fd){
RAZF *rz;
#ifdef _WIN32
setmode(fd, O_BINARY);
#endif
rz = calloc(1, sizeof(RAZF));
rz->mode = 'w';
#ifdef _USE_KNETFILE
rz->x.fpw = fd;
#else
rz->filedes = fd;
#endif
rz->stream = calloc(sizeof(z_stream), 1);
rz->inbuf = malloc(RZ_BUFFER_SIZE);
rz->outbuf = malloc(RZ_BUFFER_SIZE);
rz->index = calloc(sizeof(ZBlockIndex), 1);
deflateInit2(rz->stream, RZ_COMPRESS_LEVEL, Z_DEFLATED, WINDOW_BITS + 16, DEF_MEM_LEVEL, Z_DEFAULT_STRATEGY);
rz->stream->avail_out = RZ_BUFFER_SIZE;
rz->stream->next_out = rz->outbuf;
rz->header = calloc(sizeof(gz_header), 1);
rz->header->os = 0x03; //Unix
rz->header->text = 0;
rz->header->time = 0;
rz->header->extra = malloc(7);
strncpy((char*)rz->header->extra, "RAZF", 4);
rz->header->extra[4] = 1; // obsolete field
// block size = RZ_BLOCK_SIZE, Big-Endian
rz->header->extra[5] = RZ_BLOCK_SIZE >> 8;
rz->header->extra[6] = RZ_BLOCK_SIZE & 0xFF;
rz->header->extra_len = 7;
rz->header->name = rz->header->comment = 0;
rz->header->hcrc = 0;
deflateSetHeader(rz->stream, rz->header);
rz->block_pos = rz->block_off = 0;
return rz;
}
static void _razf_write(RAZF* rz, const void *data, int size){
int tout;
rz->stream->avail_in = size;
rz->stream->next_in = (void*)data;
while(1){
tout = rz->stream->avail_out;
deflate(rz->stream, Z_NO_FLUSH);
rz->out += tout - rz->stream->avail_out;
if(rz->stream->avail_out) break;
#ifdef _USE_KNETFILE
write(rz->x.fpw, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out);
#else
write(rz->filedes, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out);
#endif
rz->stream->avail_out = RZ_BUFFER_SIZE;
rz->stream->next_out = rz->outbuf;
if(rz->stream->avail_in == 0) break;
};
rz->in += size - rz->stream->avail_in;
rz->block_off += size - rz->stream->avail_in;
}
static void razf_flush(RAZF *rz){
uint32_t tout;
if(rz->buf_len){
_razf_write(rz, rz->inbuf, rz->buf_len);
rz->buf_off = rz->buf_len = 0;
}
if(rz->stream->avail_out){
#ifdef _USE_KNETFILE
write(rz->x.fpw, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out);
#else
write(rz->filedes, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out);
#endif
rz->stream->avail_out = RZ_BUFFER_SIZE;
rz->stream->next_out = rz->outbuf;
}
while(1){
tout = rz->stream->avail_out;
deflate(rz->stream, Z_FULL_FLUSH);
rz->out += tout - rz->stream->avail_out;
if(rz->stream->avail_out == 0){
#ifdef _USE_KNETFILE
write(rz->x.fpw, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out);
#else
write(rz->filedes, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out);
#endif
rz->stream->avail_out = RZ_BUFFER_SIZE;
rz->stream->next_out = rz->outbuf;
} else break;
}
rz->block_pos = rz->out;
rz->block_off = 0;
}
static void razf_end_flush(RAZF *rz){
uint32_t tout;
if(rz->buf_len){
_razf_write(rz, rz->inbuf, rz->buf_len);
rz->buf_off = rz->buf_len = 0;
}
while(1){
tout = rz->stream->avail_out;
deflate(rz->stream, Z_FINISH);
rz->out += tout - rz->stream->avail_out;
if(rz->stream->avail_out < RZ_BUFFER_SIZE){
#ifdef _USE_KNETFILE
write(rz->x.fpw, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out);
#else
write(rz->filedes, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out);
#endif
rz->stream->avail_out = RZ_BUFFER_SIZE;
rz->stream->next_out = rz->outbuf;
} else break;
}
}
static void _razf_buffered_write(RAZF *rz, const void *data, int size){
int i, n;
while(1){
if(rz->buf_len == RZ_BUFFER_SIZE){
_razf_write(rz, rz->inbuf, rz->buf_len);
rz->buf_len = 0;
}
if(size + rz->buf_len < RZ_BUFFER_SIZE){
for(i=0;i<size;i++) ((char*)rz->inbuf + rz->buf_len)[i] = ((char*)data)[i];
rz->buf_len += size;
return;
} else {
n = RZ_BUFFER_SIZE - rz->buf_len;
for(i=0;i<n;i++) ((char*)rz->inbuf + rz->buf_len)[i] = ((char*)data)[i];
size -= n;
data += n;
rz->buf_len += n;
}
}
}
int razf_write(RAZF* rz, const void *data, int size){
int ori_size, n;
int64_t next_block;
ori_size = size;
next_block = ((rz->in / RZ_BLOCK_SIZE) + 1) * RZ_BLOCK_SIZE;
while(rz->in + rz->buf_len + size >= next_block){
n = next_block - rz->in - rz->buf_len;
_razf_buffered_write(rz, data, n);
data += n;
size -= n;
razf_flush(rz);
add_zindex(rz, rz->in, rz->out);
next_block = ((rz->in / RZ_BLOCK_SIZE) + 1) * RZ_BLOCK_SIZE;
}
_razf_buffered_write(rz, data, size);
return ori_size;
}
#endif
/* gzip flag byte */
#define ASCII_FLAG 0x01 /* bit 0 set: file probably ascii text */
#define HEAD_CRC 0x02 /* bit 1 set: header CRC present */
#define EXTRA_FIELD 0x04 /* bit 2 set: extra field present */
#define ORIG_NAME 0x08 /* bit 3 set: original file name present */
#define COMMENT 0x10 /* bit 4 set: file comment present */
#define RESERVED 0xE0 /* bits 5..7: reserved */
static int _read_gz_header(unsigned char *data, int size, int *extra_off, int *extra_len){
int method, flags, n, len;
if(size < 2) return 0;
if(data[0] != 0x1f || data[1] != 0x8b) return 0;
if(size < 4) return 0;
method = data[2];
flags = data[3];
if(method != Z_DEFLATED || (flags & RESERVED)) return 0;
n = 4 + 6; // Skip 6 bytes
*extra_off = n + 2;
*extra_len = 0;
if(flags & EXTRA_FIELD){
if(size < n + 2) return 0;
len = ((int)data[n + 1] << 8) | data[n];
n += 2;
*extra_off = n;
while(len){
if(n >= size) return 0;
n ++;
len --;
}
*extra_len = n - (*extra_off);
}
if(flags & ORIG_NAME) while(n < size && data[n++]);
if(flags & COMMENT) while(n < size && data[n++]);
if(flags & HEAD_CRC){
if(n + 2 > size) return 0;
n += 2;
}
return n;
}
#ifdef _USE_KNETFILE
static RAZF* razf_open_r(knetFile *fp, int _load_index){
#else
static RAZF* razf_open_r(int fd, int _load_index){
#endif
RAZF *rz;
int ext_off, ext_len;
int n, is_be, ret;
int64_t end;
unsigned char c[] = "RAZF";
rz = calloc(1, sizeof(RAZF));
rz->mode = 'r';
#ifdef _USE_KNETFILE
rz->x.fpr = fp;
#else
#ifdef _WIN32
setmode(fd, O_BINARY);
#endif
rz->filedes = fd;
#endif
rz->stream = calloc(sizeof(z_stream), 1);
rz->inbuf = malloc(RZ_BUFFER_SIZE);
rz->outbuf = malloc(RZ_BUFFER_SIZE);
rz->end = rz->src_end = 0x7FFFFFFFFFFFFFFFLL;
#ifdef _USE_KNETFILE
n = knet_read(rz->x.fpr, rz->inbuf, RZ_BUFFER_SIZE);
#else
n = read(rz->filedes, rz->inbuf, RZ_BUFFER_SIZE);
#endif
ret = _read_gz_header(rz->inbuf, n, &ext_off, &ext_len);
if(ret == 0){
PLAIN_FILE:
rz->in = n;
rz->file_type = FILE_TYPE_PLAIN;
memcpy(rz->outbuf, rz->inbuf, n);
rz->buf_len = n;
free(rz->stream);
rz->stream = NULL;
return rz;
}
rz->header_size = ret;
ret = inflateInit2(rz->stream, -WINDOW_BITS);
if(ret != Z_OK){ inflateEnd(rz->stream); goto PLAIN_FILE;}
rz->stream->avail_in = n - rz->header_size;
rz->stream->next_in = rz->inbuf + rz->header_size;
rz->stream->avail_out = RZ_BUFFER_SIZE;
rz->stream->next_out = rz->outbuf;
rz->file_type = FILE_TYPE_GZ;
rz->in = rz->header_size;
rz->block_pos = rz->header_size;
rz->next_block_pos = rz->header_size;
rz->block_off = 0;
if(ext_len < 7 || memcmp(rz->inbuf + ext_off, c, 4) != 0) return rz;
if(((((unsigned char*)rz->inbuf)[ext_off + 5] << 8) | ((unsigned char*)rz->inbuf)[ext_off + 6]) != RZ_BLOCK_SIZE){
fprintf(stderr, " -- WARNING: RZ_BLOCK_SIZE is not %d, treat source as gz file. in %s -- %s:%d --\n", RZ_BLOCK_SIZE, __FUNCTION__, __FILE__, __LINE__);
return rz;
}
rz->load_index = _load_index;
rz->file_type = FILE_TYPE_RZ;
#ifdef _USE_KNETFILE
if(knet_seek(fp, -16, SEEK_END) == -1){
#else
if(lseek(fd, -16, SEEK_END) == -1){
#endif
UNSEEKABLE:
rz->seekable = 0;
rz->index = NULL;
rz->src_end = rz->end = 0x7FFFFFFFFFFFFFFFLL;
} else {
is_be = is_big_endian();
rz->seekable = 1;
#ifdef _USE_KNETFILE
knet_read(fp, &end, sizeof(int64_t));
#else
read(fd, &end, sizeof(int64_t));
#endif
if(!is_be) rz->src_end = (int64_t)byte_swap_8((uint64_t)end);
else rz->src_end = end;
#ifdef _USE_KNETFILE
knet_read(fp, &end, sizeof(int64_t));
#else
read(fd, &end, sizeof(int64_t));
#endif
if(!is_be) rz->end = (int64_t)byte_swap_8((uint64_t)end);
else rz->end = end;
if(n > rz->end){
rz->stream->avail_in -= n - rz->end;
n = rz->end;
}
if(rz->end > rz->src_end){
#ifdef _USE_KNETFILE
knet_seek(fp, rz->in, SEEK_SET);
#else
lseek(fd, rz->in, SEEK_SET);
#endif
goto UNSEEKABLE;
}
#ifdef _USE_KNETFILE
knet_seek(fp, rz->end, SEEK_SET);
if(knet_tell(fp) != rz->end){
knet_seek(fp, rz->in, SEEK_SET);
#else
if(lseek(fd, rz->end, SEEK_SET) != rz->end){
lseek(fd, rz->in, SEEK_SET);
#endif
goto UNSEEKABLE;
}
#ifdef _USE_KNETFILE
load_zindex(rz, fp);
knet_seek(fp, n, SEEK_SET);
#else
load_zindex(rz, fd);
lseek(fd, n, SEEK_SET);
#endif
}
return rz;
}
#ifdef _USE_KNETFILE
RAZF* razf_dopen(int fd, const char *mode){
if (strstr(mode, "r")) fprintf(stderr,"[razf_dopen] implement me\n");
else if(strstr(mode, "w")) return razf_open_w(fd);
return NULL;
}
RAZF* razf_dopen2(int fd, const char *mode)
{
fprintf(stderr,"[razf_dopen2] implement me\n");
return NULL;
}
#else
RAZF* razf_dopen(int fd, const char *mode){
if(strstr(mode, "r")) return razf_open_r(fd, 1);
else if(strstr(mode, "w")) return razf_open_w(fd);
else return NULL;
}
RAZF* razf_dopen2(int fd, const char *mode)
{
if(strstr(mode, "r")) return razf_open_r(fd, 0);
else if(strstr(mode, "w")) return razf_open_w(fd);
else return NULL;
}
#endif
static inline RAZF* _razf_open(const char *filename, const char *mode, int _load_index){
int fd;
RAZF *rz;
if(strstr(mode, "r")){
#ifdef _USE_KNETFILE
knetFile *fd = knet_open(filename, "r");
if (fd == 0) {
fprintf(stderr, "[_razf_open] fail to open %s\n", filename);
return NULL;
}
#else
#ifdef _WIN32
fd = open(filename, O_RDONLY | O_BINARY);
#else
fd = open(filename, O_RDONLY);
#endif
#endif
if(fd < 0) return NULL;
rz = razf_open_r(fd, _load_index);
} else if(strstr(mode, "w")){
#ifdef _WIN32
fd = open(filename, O_WRONLY | O_CREAT | O_TRUNC | O_BINARY, 0666);
#else
fd = open(filename, O_WRONLY | O_CREAT | O_TRUNC, 0666);
#endif
if(fd < 0) return NULL;
rz = razf_open_w(fd);
} else return NULL;
return rz;
}
RAZF* razf_open(const char *filename, const char *mode){
return _razf_open(filename, mode, 1);
}
RAZF* razf_open2(const char *filename, const char *mode){
return _razf_open(filename, mode, 0);
}
int razf_get_data_size(RAZF *rz, int64_t *u_size, int64_t *c_size){
int64_t n;
if(rz->mode != 'r' && rz->mode != 'R') return 0;
switch(rz->file_type){
case FILE_TYPE_PLAIN:
if(rz->end == 0x7fffffffffffffffLL){
#ifdef _USE_KNETFILE
if(knet_seek(rz->x.fpr, 0, SEEK_CUR) == -1) return 0;
n = knet_tell(rz->x.fpr);
knet_seek(rz->x.fpr, 0, SEEK_END);
rz->end = knet_tell(rz->x.fpr);
knet_seek(rz->x.fpr, n, SEEK_SET);
#else
if((n = lseek(rz->filedes, 0, SEEK_CUR)) == -1) return 0;
rz->end = lseek(rz->filedes, 0, SEEK_END);
lseek(rz->filedes, n, SEEK_SET);
#endif
}
*u_size = *c_size = rz->end;
return 1;
case FILE_TYPE_GZ:
return 0;
case FILE_TYPE_RZ:
if(rz->src_end == rz->end) return 0;
*u_size = rz->src_end;
*c_size = rz->end;
return 1;
default:
return 0;
}
}
static int _razf_read(RAZF* rz, void *data, int size){
int ret, tin;
if(rz->z_eof || rz->z_err) return 0;
if (rz->file_type == FILE_TYPE_PLAIN) {
#ifdef _USE_KNETFILE
ret = knet_read(rz->x.fpr, data, size);
#else
ret = read(rz->filedes, data, size);
#endif
if (ret == 0) rz->z_eof = 1;
return ret;
}
rz->stream->avail_out = size;
rz->stream->next_out = data;
while(rz->stream->avail_out){
if(rz->stream->avail_in == 0){
if(rz->in >= rz->end){ rz->z_eof = 1; break; }
if(rz->end - rz->in < RZ_BUFFER_SIZE){
#ifdef _USE_KNETFILE
rz->stream->avail_in = knet_read(rz->x.fpr, rz->inbuf, rz->end -rz->in);
#else
rz->stream->avail_in = read(rz->filedes, rz->inbuf, rz->end -rz->in);
#endif
} else {
#ifdef _USE_KNETFILE
rz->stream->avail_in = knet_read(rz->x.fpr, rz->inbuf, RZ_BUFFER_SIZE);
#else
rz->stream->avail_in = read(rz->filedes, rz->inbuf, RZ_BUFFER_SIZE);
#endif
}
if(rz->stream->avail_in == 0){
rz->z_eof = 1;
break;
}
rz->stream->next_in = rz->inbuf;
}
tin = rz->stream->avail_in;
ret = inflate(rz->stream, Z_BLOCK);
rz->in += tin - rz->stream->avail_in;
if(ret == Z_NEED_DICT || ret == Z_MEM_ERROR || ret == Z_DATA_ERROR){
fprintf(stderr, "[_razf_read] inflate error: %d %s (at %s:%d)\n", ret, rz->stream->msg ? rz->stream->msg : "", __FILE__, __LINE__);
rz->z_err = 1;
break;
}
if(ret == Z_STREAM_END){
rz->z_eof = 1;
break;
}
if ((rz->stream->data_type&128) && !(rz->stream->data_type&64)){
rz->buf_flush = 1;
rz->next_block_pos = rz->in;
break;
}
}
return size - rz->stream->avail_out;
}
int razf_read(RAZF *rz, void *data, int size){
int ori_size, i;
ori_size = size;
while(size > 0){
if(rz->buf_len){
if(size < rz->buf_len){
for(i=0;i<size;i++) ((char*)data)[i] = ((char*)rz->outbuf + rz->buf_off)[i];
rz->buf_off += size;
rz->buf_len -= size;
data += size;
rz->block_off += size;
size = 0;
break;
} else {
for(i=0;i<rz->buf_len;i++) ((char*)data)[i] = ((char*)rz->outbuf + rz->buf_off)[i];
data += rz->buf_len;
size -= rz->buf_len;
rz->block_off += rz->buf_len;
rz->buf_off = 0;
rz->buf_len = 0;
if(rz->buf_flush){
rz->block_pos = rz->next_block_pos;
rz->block_off = 0;
rz->buf_flush = 0;
}
}
} else if(rz->buf_flush){
rz->block_pos = rz->next_block_pos;
rz->block_off = 0;
rz->buf_flush = 0;
}
if(rz->buf_flush) continue;
rz->buf_len = _razf_read(rz, rz->outbuf, RZ_BUFFER_SIZE);
if((rz->z_eof && rz->buf_len == 0) || rz->z_err) break; /* MTM */
}
rz->out += ori_size - size;
return ori_size - size;
}
int razf_skip(RAZF* rz, int size){
int ori_size;
ori_size = size;
while(size > 0){
if(rz->buf_len){
if(size < rz->buf_len){
rz->buf_off += size;
rz->buf_len -= size;
rz->block_off += size;
size = 0;
break;
} else {
size -= rz->buf_len;
rz->buf_off = 0;
rz->buf_len = 0;
rz->block_off += rz->buf_len;
if(rz->buf_flush){
rz->block_pos = rz->next_block_pos;
rz->block_off = 0;
rz->buf_flush = 0;
}
}
} else if(rz->buf_flush){
rz->block_pos = rz->next_block_pos;
rz->block_off = 0;
rz->buf_flush = 0;
}
if(rz->buf_flush) continue;
rz->buf_len = _razf_read(rz, rz->outbuf, RZ_BUFFER_SIZE);
if((rz->z_eof && rz->buf_len == 0) || rz->z_err) break; /* MTM */
}
rz->out += ori_size - size;
return ori_size - size;
}
static void _razf_reset_read(RAZF *rz, int64_t in, int64_t out){
#ifdef _USE_KNETFILE
knet_seek(rz->x.fpr, in, SEEK_SET);
#else
lseek(rz->filedes, in, SEEK_SET);
#endif
rz->in = in;
rz->out = out;
rz->block_pos = in;
rz->next_block_pos = in;
rz->block_off = 0;
rz->buf_flush = 0;
rz->z_eof = rz->z_err = 0;
inflateReset(rz->stream);
rz->stream->avail_in = 0;
rz->buf_off = rz->buf_len = 0;
}
int64_t razf_jump(RAZF *rz, int64_t block_start, int block_offset){
int64_t pos;
rz->z_eof = 0;
if(rz->file_type == FILE_TYPE_PLAIN){
rz->buf_off = rz->buf_len = 0;
pos = block_start + block_offset;
#ifdef _USE_KNETFILE
knet_seek(rz->x.fpr, pos, SEEK_SET);
pos = knet_tell(rz->x.fpr);
#else
pos = lseek(rz->filedes, pos, SEEK_SET);
#endif
rz->out = rz->in = pos;
return pos;
}
if(block_start == rz->block_pos && block_offset >= rz->block_off) {
block_offset -= rz->block_off;
goto SKIP; // Needn't reset inflate
}
if(block_start == 0) block_start = rz->header_size; // Automaticly revist wrong block_start
_razf_reset_read(rz, block_start, 0);
SKIP:
if(block_offset) razf_skip(rz, block_offset);
return rz->block_off;
}
int64_t razf_seek(RAZF* rz, int64_t pos, int where){
int64_t idx;
int64_t seek_pos, new_out;
rz->z_eof = 0;
if (where == SEEK_CUR) pos += rz->out;
else if (where == SEEK_END) pos += rz->src_end;
if(rz->file_type == FILE_TYPE_PLAIN){
#ifdef _USE_KNETFILE
knet_seek(rz->x.fpr, pos, SEEK_SET);
seek_pos = knet_tell(rz->x.fpr);
#else
seek_pos = lseek(rz->filedes, pos, SEEK_SET);
#endif
rz->buf_off = rz->buf_len = 0;
rz->out = rz->in = seek_pos;
return seek_pos;
} else if(rz->file_type == FILE_TYPE_GZ){
if(pos >= rz->out) goto SKIP;
/* MTM */
fprintf(stderr,
".gz files support sequential access only; uncompress");
abort();
return rz->out;
}
if(pos == rz->out) return pos;
if(pos > rz->src_end) return rz->out;
if(!rz->seekable || !rz->load_index){
if(pos >= rz->out) goto SKIP;
}
idx = pos / RZ_BLOCK_SIZE - 1;
seek_pos = (idx < 0)? rz->header_size:(rz->index->cell_offsets[idx] + rz->index->bin_offsets[idx / RZ_BIN_SIZE]);
new_out = (idx + 1) * RZ_BLOCK_SIZE;
if(pos > rz->out && new_out <= rz->out) goto SKIP;
_razf_reset_read(rz, seek_pos, new_out);
SKIP:
razf_skip(rz, (int)(pos - rz->out));
return rz->out;
}
uint64_t razf_tell2(RAZF *rz)
{
/*
if (rz->load_index) {
int64_t idx, seek_pos;
idx = rz->out / RZ_BLOCK_SIZE - 1;
seek_pos = (idx < 0)? rz->header_size:(rz->index->cell_offsets[idx] + rz->index->bin_offsets[idx / RZ_BIN_SIZE]);
if (seek_pos != rz->block_pos || rz->out%RZ_BLOCK_SIZE != rz->block_off)
fprintf(stderr, "[razf_tell2] inconsistent block offset: (%lld, %lld) != (%lld, %lld)\n",
(long long)seek_pos, (long long)rz->out%RZ_BLOCK_SIZE, (long long)rz->block_pos, (long long) rz->block_off);
}
*/
return (uint64_t)rz->block_pos<<16 | (rz->block_off&0xffff);
}
int64_t razf_seek2(RAZF *rz, uint64_t voffset, int where)
{
if (where != SEEK_SET) return -1;
return razf_jump(rz, voffset>>16, voffset&0xffff);
}
void razf_close(RAZF *rz){
if(rz->mode == 'w'){
#ifndef _RZ_READONLY
razf_end_flush(rz);
deflateEnd(rz->stream);
razf_flush(rz); /* MTM */
add_zindex(rz, rz->in, rz->out); /* MTM */
#ifdef _USE_KNETFILE
save_zindex(rz, rz->x.fpw);
if(is_big_endian()){
write(rz->x.fpw, &rz->in, sizeof(int64_t));
write(rz->x.fpw, &rz->out, sizeof(int64_t));
} else {
uint64_t v64 = byte_swap_8((uint64_t)rz->in);
write(rz->x.fpw, &v64, sizeof(int64_t));
v64 = byte_swap_8((uint64_t)rz->out);
write(rz->x.fpw, &v64, sizeof(int64_t));
}
#else
save_zindex(rz, rz->filedes);
if(is_big_endian()){
write(rz->filedes, &rz->in, sizeof(int64_t));
write(rz->filedes, &rz->out, sizeof(int64_t));
} else {
uint64_t v64 = byte_swap_8((uint64_t)rz->in);
write(rz->filedes, &v64, sizeof(int64_t));
v64 = byte_swap_8((uint64_t)rz->out);
write(rz->filedes, &v64, sizeof(int64_t));
}
#endif
#endif
} else if(rz->mode == 'r'){
if(rz->stream) inflateEnd(rz->stream);
}
if(rz->inbuf) free(rz->inbuf);
if(rz->outbuf) free(rz->outbuf);
if(rz->header){
free(rz->header->extra);
free(rz->header->name);
free(rz->header->comment);
free(rz->header);
}
if(rz->index){
free(rz->index->bin_offsets);
free(rz->index->cell_offsets);
free(rz->index);
}
free(rz->stream);
#ifdef _USE_KNETFILE
if (rz->mode == 'r')
knet_close(rz->x.fpr);
if (rz->mode == 'w')
close(rz->x.fpw);
#else
close(rz->filedes);
#endif
free(rz);
}
#endif
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